BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0340.0026.p (276 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM0104 [K] COG2207 AraC-type DNA-binding domain-containing prot... 78 2e-14 araC [K] COG2207 AraC-type DNA-binding domain-containing proteins 74 2e-13 ECs0068 [K] COG2207 AraC-type DNA-binding domain-containing prot... 74 2e-13 lin1152 [K] COG2207 AraC-type DNA-binding domain-containing prot... 74 3e-13 VC1825 [K] COG2207 AraC-type DNA-binding domain-containing proteins 69 1e-11 >STM0104 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 281 Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 60/246 (24%), Positives = 104/246 (42%), Gaps = 14/246 (5%) Query: 34 MERPAGFPDYQLHQVLEGKGELFLKDKHYIVEPGDVFFLFPHVVHAYA--PISAAWKLSW 91 ++RP G Y L+ + G+G + + ++ PGD+ P +H Y P ++ W W Sbjct: 36 IDRPLGMKGYILNLTIRGEGVINNNGEQFVCRPGDILLFPPGEIHHYGRHPDASEWYHQW 95 Query: 92 VSFNGREAG-------SLLAYAGIRESGTGRLSRLPLLESLHKMLELSHGNSLQMNLERS 144 V F R ++ A G R E +++ G L Sbjct: 96 VYFRPRAYWQEWLTWPTIFAQTGFFRPDEARQPHFS--ELFGQIISAGQGEGRYSELLAI 153 Query: 145 KLMYALLLELKVQLSAPAGGPEELERIKPVLQHIESNLHRA-LPLKELAEVASISPQYLC 203 L+ LLL ++ P + R++ Q+I +L + + +A+ +SP L Sbjct: 154 NLLEQLLLRRMAVINESLHPPMD-SRVRDACQYISDHLADSHFDIASVAQHVCLSPSRLS 212 Query: 204 RLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQAGFENTSYFCAVFKRVTGM 263 LF++ L +++ QRI+ +K L+ S I + GF++ YF VFK+ TG Sbjct: 213 HLFRQQLGISVLSWREDQRISQAK-LLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGA 271 Query: 264 RPEEFK 269 P EF+ Sbjct: 272 SPSEFR 277 >araC [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/253 (24%), Positives = 105/253 (41%), Gaps = 18/253 (7%) Query: 34 MERPAGFPDYQLHQVLEGKGELFLKDKHYIVEPGDVFFLFPHVVHAYA--PISAAWKLSW 91 ++RP G Y L+ + G+G + + + ++ PGD+ P +H Y P + W W Sbjct: 36 IDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQW 95 Query: 92 VSFNGR-------EAGSLLAYAGIRESGTGRLSRLPLLESLHKMLELSHGNSLQMNLERS 144 V F R S+ A G L +++ G L Sbjct: 96 VYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHFSDL--FGQIINAGQGEGRYSELLAI 153 Query: 145 KLMYALLLELKVQLSAPAGGPEELERIKPVLQHIESNLHRA-LPLKELAEVASISPQYLC 203 L+ LLL ++ P + R++ Q+I +L + + +A+ +SP L Sbjct: 154 NLLEQLLLRRMEAINESLHPPMD-NRVREACQYISDHLADSNFDIASVAQHVCLSPSRLS 212 Query: 204 RLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQAGFENTSYFCAVFKRVTGM 263 LF++ L +++ QRI+ +K L+ S I + GF++ YF VFK+ TG Sbjct: 213 HLFRQQLGISVLSWREDQRISQAK-LLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGA 271 Query: 264 RPEEFKQLHGLGC 276 P EF+ GC Sbjct: 272 SPSEFRA----GC 280 >ECs0068 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 292 Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 62/253 (24%), Positives = 105/253 (41%), Gaps = 18/253 (7%) Query: 34 MERPAGFPDYQLHQVLEGKGELFLKDKHYIVEPGDVFFLFPHVVHAYA--PISAAWKLSW 91 ++RP G Y L+ + G+G + + + ++ PGD+ P +H Y P + W W Sbjct: 36 IDRPLGMKGYILNLTIRGQGVVKNQGREFVCRPGDILLFPPGEIHHYGRHPEAREWYHQW 95 Query: 92 VSFNGR-------EAGSLLAYAGIRESGTGRLSRLPLLESLHKMLELSHGNSLQMNLERS 144 V F R S+ A G L +++ G L Sbjct: 96 VYFRPRAYWHEWLNWPSIFANTGFFRPDEAHQPHFSDL--FGQIINAGQGEGRYSELLAI 153 Query: 145 KLMYALLLELKVQLSAPAGGPEELERIKPVLQHIESNLHRA-LPLKELAEVASISPQYLC 203 L+ LLL ++ P + R++ Q+I +L + + +A+ +SP L Sbjct: 154 NLLEQLLLRRMEAINESLHPPMD-NRVREACQYISDHLADSNFDIASVAQHVCLSPSRLS 212 Query: 204 RLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQAGFENTSYFCAVFKRVTGM 263 LF++ L +++ QRI+ +K L+ S I + GF++ YF VFK+ TG Sbjct: 213 HLFRQQLGISVLSWREDQRISQAK-LLLSTTRMPIATVGRNVGFDDQLYFSRVFKKCTGA 271 Query: 264 RPEEFKQLHGLGC 276 P EF+ GC Sbjct: 272 SPSEFRA----GC 280 >lin1152 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 183 Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 37/111 (33%), Positives = 68/111 (61%), Gaps = 3/111 (2%) Query: 159 SAPAGGPEELERIKPVLQHIESNLHRALPLKELAEVASISPQYLCRLFQRTLHERPVTYI 218 S+ G E + IK +++I+ N+HR++ L+E+A +SP YL +LF+ L+ + Y+ Sbjct: 72 SSKTSG--EHKEIKQAIRYIKKNIHRSITLEEVANYVYLSPFYLSKLFKNELNINFINYV 129 Query: 219 NKQRINLSKQLMFSGREKRIYEIAEQAGFENTSYFCAVFKRVTGMRPEEFK 269 N+Q++ +K+ + + ++ IA+ GF SYFC VFK+ M P+E++ Sbjct: 130 NEQKMLYAKEQL-EKSDWAVHTIAKNLGFSRASYFCKVFKKEFDMTPKEYR 179 >VC1825 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 279 Score = 68.6 bits (166), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 40/128 (31%), Positives = 69/128 (53%), Gaps = 7/128 (5%) Query: 146 LMYALLLELKVQLSAPAGGPEELERIKPVLQ----HIESNLHRALPLKELAEVASISPQY 201 L+ ALL + L+AP P+ R++ + Q +I+ N HR + + +A SIS + Sbjct: 152 LLQALLQYTQTMLNAPTEQPQN--RVQDLYQGICIYIQENFHRPITRESIASRFSISANH 209 Query: 202 LCRLFQRTLHERPVTYINKQRINLSKQLMFSGREKRIYEIAEQAGFENTSYFCAVFKRVT 261 L RLF++ H YI R++ +K M ++ E++ + GF++ +YFC VFK T Sbjct: 210 LSRLFRQQGHMTLADYITWVRVDRAK-FMLKKYNFKLNEVSLRCGFKDVNYFCRVFKNRT 268 Query: 262 GMRPEEFK 269 G P +++ Sbjct: 269 GRTPTDYR 276 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.321 0.137 0.409 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 20,606,235 Number of extensions: 826591 Number of successful extensions: 8525 Number of sequences better than 1.0e-05: 55 Number of HSP's gapped: 8552 Number of HSP's successfully gapped: 55 Length of query: 276 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 171 Effective length of database: 26,268,361 Effective search space: 4491889731 Effective search space used: 4491889731 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 115 (48.9 bits)